You might want to make sure you run configframework.exe /u and delete all the biztalk and sso db’s before you run the wizard again. Are you using a remote SQL Server on a Domain? Or is this a single server install? What OS?
If it makes you feel any better, 2 of the past 3 times I have done production installations of Biztalk we had to call Production Support. One call took 2 days!
Keep your head up! Life gets easier in Biztalk 2006.